This guy has something in his hand and he is running to a cetain spot. As he is running he gets shot in the butt. He keeps running and is shot again. He keeps running and is shot again and starts screaming. Its some type of 80's action movie. I thought it was Iron Eagle but I was wrong. Some type of fighter jet movie. Please help.

My guess is that its "Parts: The Clonus Horror." When the main clone guy escapes from the clone farm, he is shot at repeatedly while running away through a desert-like setting. It's one of the many things that Mike, Crow, and Servo heckled in the MST3K episode of "Parts."Look at the scene about five minutes into the film on this clip from the aforementioned MST3K episode, see if that's it: